Software: Minialign
Description
Minialign is a little bit fast and moderately accurate nucleotide sequence alignment tool designed for PacBio and Nanopore long reads.
Available Versions
| Unspecified: | 0.5.3 |
|---|
For more information, please check its website: https://biocontainers.pro/tools/minialign and its home page on Github.
Commands
- minialign
Module
You can load the modules by:
module load biocontainers
module load minialign
Example job
Using
#!/bin/sh -las shebang in the slurm job script will cause the failure of some biocontainer modules. Please use#!/bin/bashinstead.
To run Minialign on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=minialign
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers minialign
minialign -d index.mai genome.fasta
minialign -l index.mai input.fastq > out.sam